RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1045
(113 letters)
>gnl|CDD|241265 cd01231, PH_SH2B_family, SH2B adapter protein 1, 2, and 3
Pleckstrin homology (PH) domain. SH2B family/APS
proteins are a family of intracellular adaptor proteins
that influences a variety of signaling pathways mediated
by Janus kinase (JAK) and receptor tyrosine kinases
(RTKs) including receptors for insulin, insulin-like
growth factor-1, Janus kinase 2 (Jak2), platelet derived
growth factor, fibroblast growth factor and nerve growth
factor. They function in glucose homeostasis, energy
metabolism, hematopoesis and reproduction. Mutations in
human SH2B orthologs are associated with metabolic
disregulation and obesity. There are several SH2B
members in mammals: SH2B1 (splice variants: SH2B1alpha,
SH2B1beta, SH2B1gamma, and SH2B1delta), SH2B2 (APS) and
SH2B3 (Lnk). They contain a PH domain, a SH2 domain, a
proline rich region, multiple consensus sites for
tyrosine and serine/threonine phosphorylation and a
highly conserved c-Cbl recognition motif. These domains
function as protein-protein interaction motifs which
allows SH2B proteins to integrate and transduce
intracellular signals from multiple signaling networks
in the absence of intrinsic catalytic activity. SH2B
proteins bind via their SH2 domains to phosphotyrosine
residues within the intracellular tails of several
activated RTKs thereby contributing to receptor
activation. SH2B proteins have been shown to interact
with insulin receptor substrates IRS1 and IRS2, Grb2,
Shc and c-Cbl which may or may not require
RTK-stimulated tyrosine phosphorylation of SH2B.
positively and negatively regulating RTK signaling.
Understanding the physiological functions of SH2B
proteins in mammals has been complicated by the presence
of multiple SH2B isoforms and conflicting data. Both
SH2-Bbeta and APS associate with JAKs, but the former
facilitates JAK/STAT signaling while the latter inhibits
it. Lnk plays a role in cell growth and proliferation
with mutations resulting in growth reduction,
developmental delay and female sterility. Recently Lnk
Drosophila has been shown to be an important regulator
of the insulin/insulin-like growth factor (IGF)-1
signaling (IIS) pathway during growth. PH domains have
diverse functions, but in general are involved in
targeting proteins to the appropriate cellular location
or in the interaction with a binding partner. They share
little sequence conservation, but all have a common
fold, which is electrostatically polarized. Less than
10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 115
Score = 147 bits (373), Expect = 2e-47
Identities = 54/84 (64%), Positives = 62/84 (73%), Gaps = 5/84 (5%)
Query: 33 ECRKEGIVNYLVGENT--DGTQKWEKCRLALVKTVGG---YMLEFYSPPKSLKPKKGVFC 87
E RKEG + YL GE T DG +W+KCRL L K GG Y+LEFY PPK+ KPK G+FC
Sbjct: 1 EIRKEGTLRYLSGEETAHDGGPRWQKCRLVLRKAAGGDGEYLLEFYVPPKASKPKLGIFC 60
Query: 88 FLITEARETSALEMPDHENTFVLK 111
LI E RET+ALEMPD+ENTFVLK
Sbjct: 61 SLIQEVRETTALEMPDNENTFVLK 84
>gnl|CDD|240355 PTZ00314, PTZ00314, inosine-5'-monophosphate dehydrogenase;
Provisional.
Length = 495
Score = 34.6 bits (80), Expect = 0.006
Identities = 13/16 (81%), Positives = 13/16 (81%)
Query: 1 MAIAMALCGGIGRIKN 16
MAIAMAL GGIG I N
Sbjct: 66 MAIAMALMGGIGVIHN 81
>gnl|CDD|238223 cd00381, IMPDH, IMPDH: The catalytic domain of the inosine
monophosphate dehydrogenase. IMPDH catalyzes the
NAD-dependent oxidation of inosine 5'-monophosphate
(IMP) to xanthosine 5' monophosphate (XMP). It is a
rate-limiting step in the de novo synthesis of the
guanine nucleotides. There is often a CBS domain
inserted in the middle of this domain, which is
proposed to play a regulatory role. IMPDH is a key
enzyme in the regulation of cell proliferation and
differentiation. It has been identified as an
attractive target for developing chemotherapeutic
agents.
Length = 325
Score = 30.6 bits (70), Expect = 0.11
Identities = 11/14 (78%), Positives = 11/14 (78%)
Query: 1 MAIAMALCGGIGRI 14
MAIAMA GGIG I
Sbjct: 50 MAIAMARLGGIGVI 63
>gnl|CDD|215936 pfam00478, IMPDH, IMP dehydrogenase / GMP reductase domain. This
family is involved in biosynthesis of guanosine
nucleotide. Members of this family contain a TIM barrel
structure. In the inosine monophosphate dehydrogenases
2 CBS domains pfam00571 are inserted in the TIM barrel.
This family is a member of the common phosphate binding
site TIM barrel family.
Length = 467
Score = 30.3 bits (69), Expect = 0.15
Identities = 11/14 (78%), Positives = 11/14 (78%)
Query: 1 MAIAMALCGGIGRI 14
MAIAMA GGIG I
Sbjct: 52 MAIAMAREGGIGVI 65
>gnl|CDD|233350 TIGR01302, IMP_dehydrog, inosine-5'-monophosphate dehydrogenase.
This model describes IMP dehydrogenase, an enzyme of
GMP biosynthesis. This form contains two CBS domains.
This model describes a rather tightly conserved cluster
of IMP dehydrogenase sequences, many of which are
characterized. The model excludes two related families
of proteins proposed also to be IMP dehydrogenases, but
without characterized members. These are related
families are the subject of separate models [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 450
Score = 29.6 bits (67), Expect = 0.28
Identities = 11/16 (68%), Positives = 11/16 (68%)
Query: 1 MAIAMALCGGIGRIKN 16
MAIAMA GGIG I
Sbjct: 50 MAIAMAREGGIGVIHR 65
>gnl|CDD|235507 PRK05567, PRK05567, inosine 5'-monophosphate dehydrogenase;
Reviewed.
Length = 486
Score = 29.0 bits (66), Expect = 0.46
Identities = 13/17 (76%), Positives = 13/17 (76%), Gaps = 1/17 (5%)
Query: 1 MAIAMALCGGIGRI-KN 16
MAIAMA GGIG I KN
Sbjct: 57 MAIAMAREGGIGVIHKN 73
>gnl|CDD|215154 PLN02274, PLN02274, inosine-5'-monophosphate dehydrogenase.
Length = 505
Score = 28.5 bits (64), Expect = 0.74
Identities = 10/14 (71%), Positives = 11/14 (78%)
Query: 1 MAIAMALCGGIGRI 14
MAIAMA GGIG +
Sbjct: 70 MAIAMAALGGIGIV 83
>gnl|CDD|235608 PRK05786, fabG, 3-ketoacyl-(acyl-carrier-protein) reductase;
Provisional.
Length = 238
Score = 26.6 bits (59), Expect = 2.6
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 9/53 (16%)
Query: 25 NKLAKIVVECRKEGIVNYLVGE--NTDGTQKW-EKCRLA------LVKTVGGY 68
NKL ++ K G ++Y+VG+ +T+ + EK LV TVGGY
Sbjct: 40 NKLKRMKKTLSKYGNIHYVVGDVSSTESARNVIEKAAKVLNAIDGLVVTVGGY 92
>gnl|CDD|175987 cd04020, C2B_SLP_1-2-3-4, C2 domain second repeat present in
Synaptotagmin-like proteins 1-4. All Slp members
basically share an N-terminal Slp homology domain (SHD)
and C-terminal tandem C2 domains (named the C2A domain
and the C2B domain) with the SHD and C2 domains being
separated by a linker sequence of various length.
Slp1/JFC1 and Slp2/exophilin 4 promote granule docking
to the plasma membrane. Additionally, their C2A domains
are both Ca2+ independent, unlike the case in Slp3 and
Slp4/granuphilin in which their C2A domains are Ca2+
dependent. It is thought that SHD (except for the
Slp4-SHD) functions as a specific Rab27A/B-binding
domain. In addition to Slps, rabphilin, Noc2, and
Munc13-4 also function as Rab27-binding proteins. It has
been demonstrated that Slp3 and Slp4/granuphilin promote
dense-core vesicle exocytosis. C2 domains fold into an
8-standed beta-sandwich that can adopt 2 structural
arrangements: Type I and Type II, distinguished by a
circular permutation involving their N- and C-terminal
beta strands. Many C2 domains are Ca2+-dependent
membrane-targeting modules that bind a wide variety of
substances including bind phospholipids, inositol
polyphosphates, and intracellular proteins. Most C2
domain proteins are either signal transduction enzymes
that contain a single C2 domain, such as protein kinase
C, or membrane trafficking proteins which contain at
least two C2 domains, such as synaptotagmin 1. However,
there are a few exceptions to this including RIM
isoforms and some splice variants of piccolo/aczonin and
intersectin which only have a single C2 domain. C2
domains with a calcium binding region have negatively
charged residues, primarily aspartates, that serve as
ligands for calcium ions. This cd contains the second
C2 repeat, C2B, and has a type-I topology.
Length = 162
Score = 26.1 bits (58), Expect = 3.9
Identities = 12/39 (30%), Positives = 17/39 (43%)
Query: 71 EFYSPPKSLKPKKGVFCFLITEARETSALEMPDHENTFV 109
E KS KP G + EA+ AL+ ++FV
Sbjct: 14 ESEGALKSKKPSTGELHVWVKEAKNLPALKSGGTSDSFV 52
>gnl|CDD|184032 PRK13402, PRK13402, gamma-glutamyl kinase; Provisional.
Length = 368
Score = 26.1 bits (58), Expect = 4.7
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 20 SKHKTNKLAKIVVECRKEGIVNYLV 44
S H L + +V + +G LV
Sbjct: 25 SSHYLLGLVQQIVYLKDQGHQVVLV 49
>gnl|CDD|148650 pfam07163, Pex26, Pex26 protein. This family consists of Pex26 and
related mammalian proteins. Pex26 is a type II
peroxisomal membrane protein which recruits Pex6-Pex1
complexes to peroxisomes. Mutations in Pex26 can lead to
human disorders.
Length = 309
Score = 25.7 bits (56), Expect = 5.4
Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 13/70 (18%)
Query: 34 CRK--EGIVNYLVGENTDGTQKWEKCRLALV-----------KTVGGYMLEFYSPPKSLK 80
C + + + ++ E GT KC L +V + V ++L++Y P+ L
Sbjct: 58 CERAWQSLDSFAEAEEPCGTHAEVKCSLCVVGIQALAEMDRWREVLSWVLQYYQVPEKLP 117
Query: 81 PKKGVFCFLI 90
PK C L+
Sbjct: 118 PKVLELCILL 127
>gnl|CDD|217221 pfam02772, S-AdoMet_synt_M, S-adenosylmethionine synthetase,
central domain. The three domains of
S-adenosylmethionine synthetase have the same
alpha+beta fold.
Length = 119
Score = 25.1 bits (56), Expect = 6.8
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 25 NKLAKIVVECRKEGIVNYL 43
++L + + E RK G + YL
Sbjct: 31 HRLLRRLAELRKNGTLPYL 49
>gnl|CDD|192445 pfam10018, Med4, Vitamin-D-receptor interacting Mediator subunit
4. Members of this family function as part of the
Mediator (Med) complex, which links DNA-bound
transcriptional regulators and the general
transcription machinery, particularly the RNA
polymerase II enzyme. They play a role in basal
transcription by mediating activation or repression
according to the specific complement of transcriptional
regulators bound to the promoter.
Length = 176
Score = 25.5 bits (56), Expect = 6.8
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 1/28 (3%)
Query: 11 IGRIKNRAESK-HKTNKLAKIVVECRKE 37
I ++ ES K + K + E KE
Sbjct: 31 ILELRAEVESLDEKIKDILKELKEAEKE 58
>gnl|CDD|132317 TIGR03274, methan_mark_7, putative methanogenesis marker protein 7.
Members of this protein family, to date, are found in a
completed prokaryotic genome if and only if the species
is one of the archaeal methanogens. The exact function
is unknown, but likely is linked to methanogenesis or a
process closely connected to it.
Length = 302
Score = 25.1 bits (55), Expect = 9.0
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 4 AMALCGGIGRIKNRAESKHKTNKLAKIVVECRK 36
A A GG+GRI +R + L K+V K
Sbjct: 174 ADAYVGGLGRIPHRLRRGEEIRALDKLVEVVSK 206
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.136 0.404
Gapped
Lambda K H
0.267 0.0680 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,471,927
Number of extensions: 447313
Number of successful extensions: 311
Number of sequences better than 10.0: 1
Number of HSP's gapped: 309
Number of HSP's successfully gapped: 21
Length of query: 113
Length of database: 10,937,602
Length adjustment: 77
Effective length of query: 36
Effective length of database: 7,522,344
Effective search space: 270804384
Effective search space used: 270804384
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.3 bits)